Locus 14173

Sequence ID dm3.chrX
Location 11,608,916 – 11,609,054
Length 138
Max. P 0.953701
window19514 window19515

overview

Window 4

Location 11,608,916 – 11,609,028
Length 112
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 92.02
Shannon entropy 0.13433
G+C content 0.51007
Mean single sequence MFE -10.80
Consensus MFE -9.32
Energy contribution -9.00
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.54
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.596146
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11608916 112 - 22422827
CAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCCCAUUCCCAUUCGCAAUCCCAAUUCCCAAUUCCCGUCACACGAGUUAGCAG
.(((((.(((...(((...(.((.....)).)............((.............--..............))..................)))..))).)))))..... ( -10.53, z-score =  -1.96, R)
>droEre2.scaffold_4690 15170606 108 + 18748788
CAACUCCUGUUCCCGGUUCGCCGUCGUUUGUCUUUCCCAUAUUCGCUUCUCGUAUUCCCAUUCGCAUUCGCAAUCCCAA------UUCCCAAUUCCCGUCACACGAGUUAGCAG
......(((((..(((....)).((((.((.(............((.....))..........((....))........------............).)).)))))..))))) ( -11.80, z-score =  -1.24, R)
>droYak2.chrX 6693850 114 + 21770863
CAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCCAUUCCCAUUCGCAUUCGCAAUCCCAAUUCCCAAUUCUCGUCACACGAGUUAGCAG
......(((((...((...(.((.....)).).....................................((....))....))...........((((.....))))..))))) ( -10.60, z-score =  -1.05, R)
>droSec1.super_36 297953 105 - 449511
CAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCUCAUUCCCAUUCGCAA-------UCCCAAUUCCCGUCACACGAGUUAGCAG
.(((((.(((...(((...(.((.....)).)............((.............--..............))..-------.........)))..))).)))))..... ( -10.53, z-score =  -1.59, R)
>droSim1.chrX 8938808 112 - 17042790
CAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCUCAUUCCCAUUCGCAAUCCCAAUUCCCAAUUCCCGUCACACGAGUUAGCAG
.(((((.(((...(((...(.((.....)).)............((.............--..............))..................)))..))).)))))..... ( -10.53, z-score =  -1.84, R)
>consensus
CAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC__UCCCAUUCCCAUUCGCAAUCCCAAUUCCCAAUUCCCGUCACACGAGUUAGCAG
.(((((.(((...(((...(.((.....)).)............((.....))..........................................)))..))).)))))..... ( -9.32 =  -9.00 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 5

Location 11,608,950 – 11,609,054
Length 104
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 94.27
Shannon entropy 0.10005
G+C content 0.53674
Mean single sequence MFE -29.71
Consensus MFE -26.10
Energy contribution -26.02
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -2.39
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.60
SVM RNA-class probability 0.953701
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11608950 104 - 22422827
CACCGAGUGCGGGCGAGAUAGAACGACAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCCCAUUCCCAUUCGCAAU
....(((((((((((((((.(((((((.((.((.......))...)).))))))))))..........)))))...)))))))..--................... ( -24.40, z-score =  -1.30, R)
>droEre2.scaffold_4690 15170640 100 + 18748788
CAGCGAGUGCGGGCGAGAUAGAGCGACAACUCCUGUUCCCGGUUCGCCGUCGUUUGUCUUUCCCAUAUUCGCUUCUCGUAU------UCCCAUUCGCAUUCGCAAU
..(((((((((((.((((((((.(((((((....)))...((....)))))))))))))).)))......((.....))..------........))))))))... ( -35.50, z-score =  -3.74, R)
>droYak2.chrX 6693884 106 + 21770863
CAGUGAGUGCGGGCGAGAUAGAGCGACAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCCAUUCCCAUUCGCAUUCGCAAU
..((((((((((((((((..(((((((.((.((.......))...)).)))))))((.............)).))))))..............))))))))))... ( -30.45, z-score =  -2.49, R)
>droSec1.super_36 297980 104 - 449511
CAGCGAGUGCGGGCGAGAUAGAGCGACAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCUCAUUCCCAUUCGCAAU
..(((((((.(((.((((..(((((((.((.((.......))...)).)))))))...............((.....))......--))))..))))))))))... ( -29.10, z-score =  -2.21, R)
>droSim1.chrX 8938842 104 - 17042790
CAGCGAGUGCGGGCGAGAUAGAGCGACAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC--UCUCAUUCCCAUUCGCAAU
..(((((((.(((.((((..(((((((.((.((.......))...)).)))))))...............((.....))......--))))..))))))))))... ( -29.10, z-score =  -2.21, R)
>consensus
CAGCGAGUGCGGGCGAGAUAGAGCGACAACUCCUGUUCCCGGUUCGUCGUCGUUCGUCAUUCCCAUAUUCGCUUCUCGUAUUCCC__UCCCAUUCCCAUUCGCAAU
.((((((((.(((...(((.(((((((.((.((.......))...)).))))))))))...))).))))))))................................. (-26.10 = -26.02 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:35:15 2011